add requirements

requirements.txt

@@ -0,0 +1,176 @@
+annotated-types==0.6.0
+anyio==3.6.2
+appnope==0.1.3
+argcomplete==2.1.2
+argon2-cffi==23.1.0
+argon2-cffi-bindings==21.2.0
+arrow==1.2.3
+asttokens==2.2.1
+attrs==23.1.0
+backcall==0.2.0
+beautifulsoup4==4.12.2
+biopython==1.81
+black==22.8.0
+bleach==6.0.0
+bump-pydantic==0.7.0
+cachetools==5.2.0
+-e git+ssh://[email protected]/UCLOrengoGroup/cath-alphaflow.git@8c179939d77e29cf712c170a151e5bb89fc29a39#egg=cath_alphaflow
+certifi==2023.5.7
+cffi==1.15.1
+chardet==4.0.0
+charset-normalizer==3.1.0
+click==8.1.3
+comm==0.1.3
+contourpy==1.0.7
+cx-Oracle==8.3.0
+cycler==0.11.0
+datamodel-code-generator==0.17.1
+debugpy==1.6.7
+decorator==5.1.1
+defusedxml==0.7.1
+dnspython==2.3.0
+einops==0.6.1
+email-validator==1.3.1
+exceptiongroup==1.1.3
+executing==1.2.0
+fastjsonschema==2.18.0
+filelock==3.12.0
+flake8==5.0.4
+fonttools==4.39.4
+fqdn==1.5.1
+genson==1.2.2
+google-api-core==2.10.0
+google-auth==2.11.0
+google-cloud-core==2.3.2
+google-cloud-storage==2.5.0
+google-crc32c==1.5.0
+google-resumable-media==2.3.3
+googleapis-common-protos==1.56.4
+h11==0.14.0
+httpcore==0.16.3
+httpx==0.23.3
+idna==3.4
+importlib-resources==5.12.0
+inflect==5.6.2
+iniconfig==2.0.0
+ipykernel==6.22.0
+ipython==8.12.0
+ipython-genutils==0.2.0
+isoduration==20.11.0
+isort==5.12.0
+jedi==0.18.2
+Jinja2==3.1.2
+jsonpointer==2.4
+jsonschema==4.19.0
+jsonschema-spec==0.1.4
+jsonschema-specifications==2023.7.1
+jupyter-events==0.7.0
+jupyter_client==8.2.0
+jupyter_core==5.3.0
+jupyter_server==2.7.2
+jupyter_server_terminals==0.4.4
+jupyterlab-pygments==0.2.2
+kiwisolver==1.4.4
+lazy-object-proxy==1.9.0
+libcst==1.1.0
+markdown-it-py==3.0.0
+MarkupSafe==2.1.2
+matplotlib==3.7.1
+matplotlib-inline==0.1.6
+mccabe==0.7.0
+mdurl==0.1.2
+mistune==3.0.1
+mpmath==1.3.0
+mypy-extensions==0.4.3
+natsort==8.3.1
+nbclassic==1.0.0
+nbclient==0.8.0
+nbconvert==7.8.0
+nbformat==5.9.2
+nest-asyncio==1.5.6
+networkx==3.1
+nextflow==0.4.1
+notebook==6.5.4
+notebook_shim==0.2.3
+numpy==1.24.3
+openapi-schema-validator==0.3.4
+openapi-spec-validator==0.5.1
+overrides==7.4.0
+packaging==23.1
+pandas==2.0.1
+pandocfilters==1.5.0
+parso==0.8.3
+pathable==0.4.3
+pathspec==0.10.1
+pdb-tools==2.5.0
+pexpect==4.8.0
+pickleshare==0.7.5
+Pillow==9.5.0
+platformdirs==2.5.2
+pluggy==1.0.0
+prance==0.22.11.4.0
+prettyconf==2.2.1
+prometheus-client==0.17.1
+prompt-toolkit==3.0.38
+protobuf==4.21.5
+psutil==5.9.5
+ptyprocess==0.7.0
+pure-eval==0.2.2
+py==1.11.0
+pyasn1==0.4.8
+pyasn1-modules==0.2.8
+pycodestyle==2.9.1
+pycparser==2.21
+pydantic==2.5.1
+pydantic_core==2.14.3
+pyflakes==2.5.0
+Pygments==2.15.1
+pymongo==4.3.3
+pyparsing==3.0.9
+pyrsistent==0.19.3
+PySnooper==1.1.1
+pytest==7.3.1
+python-dateutil==2.8.2
+python-json-logger==2.0.7
+pytz==2023.3
+PyYAML==6.0
+pyzmq==25.0.2
+referencing==0.30.2
+requests==2.31.0
+rfc3339-validator==0.1.4
+rfc3986==1.5.0
+rfc3986-validator==0.1.1
+rich==13.6.0
+rotary-embedding-torch==0.2.3
+rpds-py==0.10.0
+rsa==4.9
+ruamel.yaml==0.17.21
+ruamel.yaml.clib==0.2.7
+ruff==0.0.269
+scipy==1.10.1
+semver==2.13.0
+Send2Trash==1.8.2
+six==1.16.0
+smart-open==6.2.0
+sniffio==1.3.0
+soupsieve==2.4.1
+stack-data==0.6.2
+sympy==1.12
+terminado==0.17.1
+tinycss2==1.2.1
+toml==0.10.2
+tomli==2.0.1
+torch==2.0.1
+tornado==6.3.1
+traitlets==5.9.0
+typed-ast==1.5.4
+typer==0.9.0
+typing-inspect==0.9.0
+typing_extensions==4.8.0
+tzdata==2023.3
+uri-template==1.3.0
+urllib3==2.0.2
+wcwidth==0.2.6
+webcolors==1.13
+webencodings==0.5.1
+websocket-client==1.6.2